*2.9. Data Availability*

The complete genome sequence was deposited in GenBank as BioProject number PRJNA657979: for *L. donovani* K133AS-R under the SRA accession number SRR12487478 and BioSample number SAMN15854505 and for *L. donovani* K133WT under the SRA accession number SRR12487479 and BioSample number SAMN15854504. The microarray data were deposited in the GEO NCBI database (http://www.ncbi.nlm.nih.gov/geo) in the MIAME format (GEO accession number GSE118460).

#### *2.10. Quantitative Real-Time PCR (qPCR)*

A total of 14 genes were selected from microarray data and validated for their differentially modulated expression by q-PCR (Supplementary Materials Table S1). First-strand cDNA was synthesized, from 5 µG of total RNA isolated from K133WT and K133AS-R promastigotes (early log phase), using the Superscript II RNAse H reverse transcriptase enzyme (Invitrogen, Carlsbad, CA, USA) and OligodT primers (Fermentas, Waltham, MA, USA). Equal amounts of cDNA were amplified in 25-µL reactions (in triplicate) containing 6 pmoL forward and reverse primers and 1 X Fast SYBR Green mastermix using a ABI 7500 Real-time PCR system (Applied Biosystems, Waltham, MA, USA). The relative amount of PCR products generated from each primer set was determined based on the threshold cycle (Ct) value and the amplification efficiencies. Gene expression levels were normalized using constitutively expressed genes encoding cystathionine-β-synthase (CBS) and glyceraldehyde-3-phosphate dehydrogenase (GAPDH). Quantification of the relative changes in the target gene expression was calculated using the 2−∆∆Ct method. Primers for the targeted genes were designed using Primer express software version 3.0 (Applied Biosystems, Waltham, MA, USA) [57]. The list of genes, their functional relevance, and the primers used for real-time PCR are given in Supplementary Materials Table S1.
